I was in a very similar situation to yours. I graduated with a BS in Finance in 2004. I wanted a career change and I was gearing up to do an MS in Nutrition. I even took anatomy, physiology, nutrition, microbiology, organic chemistry as pre-requisites to make the transition easier. During my nutrition final I did a paper on the paleo diet and the teacher totally gunned me down and put me on the spot in front of the class. Then I had a counseling session with the director of the masters program and she convinced me that an MS in Nutrition wasn't right for me. She asked me a lot about my personal preferences and what my philosophy on nutrition was. And she asked if I was on a paleo/whole foods diet. When I responded yes, she told me that if I pursued a RD license and worked for a hospital, HMO or PPO, or any skilled nursing facilities and I pushed the paleo/whole foods diet over the diet recommended by the USDA's "My Pyramid" I could eventually get my RD license taken away. I could always open up my own practice as you cannot obviously lose your MS degree. But with the current state of nutrition/dietetics in the United States I wouldn't be able to use a RD license unless I pushed the USDA nutrition philosophy.
So I ended up not going into the MS of Nutrition program and instead enrolled in a holistic nutrition college at Bauman College (About - Bauman College). This is the same college that Diane SanFilippo of Balanced Bites attended. (She was a year ahead of me in the program). When I am done with this program (I am halfway through it), I will most pursue a master's in Kinesiology. Ultimately want to be able to consult people with a holistic whole foods approach and also be able to train them physically and I think the combination of schooling that I am enrolled in will be the best route. Best of luck to you, its a tough choice and I wrestled for 2 years about whether or not I wanted to do an MS in Nutrition program. After taking the initial nutrition course as a pre-req to the MS program, I knew that I wouldn't be able to bite my tongue and ingest all of the CW dogma for the next two years and potentially for the rest of my career.
"If man made it, don't eat it" - Jack Lallane
People say I am on a "crazy" diet. What is so crazy about eating veggies, fruits, seafood and organ meats? Just because I don't eat whole wheat and processed food doesn't make my diet "crazy". Maybe everyone else with a SAD are the "crazy" ones for putting that junk in their system.